Mercurial > repos > greg > gene_family_classifier
changeset 122:78d2a8b63c13 draft
Uploaded
| author | greg |
|---|---|
| date | Tue, 21 Mar 2017 10:38:28 -0400 |
| parents | cf5a7194d866 |
| children | 5fc33b2cbccc |
| files | gene_family_classifier.xml |
| diffstat | 1 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/gene_family_classifier.xml Tue Mar 21 10:30:35 2017 -0400 +++ b/gene_family_classifier.xml Tue Mar 21 10:38:28 2017 -0400 @@ -261,7 +261,7 @@ * **Proteins fasta file** - proteins fasta file either produced by the AssemblyPostProcessor tool or an external source selected from your history. * **Gene family scaffold** - one of the PlantTribes gene family scaffolds [2-4] installed into Galaxy by the PlantTribes Scaffold Data Manager tool. * **Protein clustering method** - gene family scaffold protein clustering method as described in the AssemblyPostProcessor tool. - * **Protein classifier** - Classifier to assign protein sequences into a specified scaffold orthogroups. PlantTribes implements three classification approaches; blastp (faster)[5], hmmscan (slower but more sensitive to the remote homologs)[6], and both blastp and hmmscan (more exhaustive). + * **Protein classifier** - classifier to assign protein sequences into a specified scaffold orthogroups. PlantTribes implements three classification approaches; blastp (faster)[5], hmmscan (slower but more sensitive to the remote homologs)[6], and both blastp and hmmscan (more exhaustive). **Other options** @@ -277,10 +277,10 @@ * **Custom selection file** - select a single/low-copy customized configuration file from your history. - * **Global selection configuration** - Used with "Global selection" configuration only. + * **Global selection configuration** - * **Minimum single copy taxa** - Minimum number of taxa with single copy genes in the orthogroup. - * **Minimum taxa present** - Minimum number of taxa present in the orthogroup. + * **Minimum single copy taxa** - minimum number of taxa with single copy genes in the orthogroup. + * **Minimum taxa present** - minimum number of taxa present in the orthogroup. * **Orthogroups fasta configuration** - select ‘Yes’ to create proteins orthogroups fasta files for the classified sequences.